Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,447,102 |
G→A |
50.0% |
S93S (TCC→TCT) |
rcsC ← |
hybrid sensory kinase in two‑component regulatory system with RcsB and YojN |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,447,102 | 0 | G | A | 50.0%
| ‑3.7
/ 63.1
| 70 | S93S (TCC→TCT) | rcsC | hybrid sensory kinase in two‑component regulatory system with RcsB and YojN |
| Reads supporting (aligned to +/- strand): ref base G (25/10); new base A (16/19); total (41/29) |
| Fisher's exact test for biased strand distribution p-value = 5.14e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.61e-01 |
GCGCATAAACCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCACGCGGGGAAAG > minE/1447039‑1447167
|
gcgcATAAACCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTCATTGCGGAACAATCGGAGTc > 1:1546252/1‑69 (MQ=255)
aaCCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTCATTGCGGAACAATCGGAGTCGGCAAAc > 1:1353289/1‑69 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGTAACAATCAGAGTCAGCa > 1:1435195/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:914588/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:2353234/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:2462702/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:2552663/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:2648383/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:3000207/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:3099771/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:3139961/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:3389063/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:1338076/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:1102557/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:476507/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:1276390/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:1104498/1‑46 (MQ=255)
agaACCTCGCCAGGTGTTACTCATTGCGGAACAATCAGAGTCAGCa > 1:591522/1‑46 (MQ=255)
gaACCTCGCCAGGTGTTACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGcaca < 1:1135378/69‑1 (MQ=255)
gtgtTACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGtt > 1:2286443/1‑69 (MQ=255)
ttACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAgg > 1:2049580/1‑50 (MQ=255)
ttACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAgg > 1:2476187/1‑50 (MQ=255)
ttACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAgg > 1:2670086/1‑50 (MQ=255)
ttACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAgg > 1:372388/1‑50 (MQ=255)
ttACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAgg > 1:3060690/1‑50 (MQ=255)
ttACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAgg > 1:3109511/1‑50 (MQ=255)
ttACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTtct > 1:1640377/1‑69 (MQ=255)
aCTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTtctc > 1:1304028/1‑68 (MQ=255)
aCTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCg > 1:105578/1‑69 (MQ=255)
aCTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCg > 1:2969626/1‑69 (MQ=255)
aCTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCg > 1:2558580/1‑69 (MQ=255)
aCTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCg > 1:2662038/1‑69 (MQ=255)
aCTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCg > 1:3377700/1‑69 (MQ=255)
aCTCATTGCGGAACAATCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTtctc < 1:2571120/68‑1 (MQ=255)
aCTCATTGCGGAACAATCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTtctc < 1:1043567/68‑1 (MQ=255)
aCTCATTGCGGAACAATCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTtctc < 1:2209797/68‑1 (MQ=255)
aCTCATTGCGGAACAATCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTtctc < 1:1287694/68‑1 (MQ=255)
aCTCATTGCGGAACAATCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTtctc < 1:1495072/68‑1 (MQ=255)
aCTCATTGCGGAACAATCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTtctc < 1:1730008/68‑1 (MQ=255)
aCTCATTGCGGAACAATCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTtctc < 1:1778702/68‑1 (MQ=255)
aCTCATTGCGGAACAATCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTtctc < 1:2007526/68‑1 (MQ=255)
aCTCATTGCGGAACAATCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTtctc < 1:2087898/68‑1 (MQ=255)
aCTCATTGCGGAACAATCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTtctc < 1:1937929/68‑1 (MQ=255)
aCTCATTGCGGAACAATCAGAGACAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTtctc < 1:2966387/68‑1 (MQ=255)
tCATTGCGGAACAATCAGAGTCAGCAAACAGCGGTTCAAACGCAGGAACATCCGTCTGCGTTtctc < 1:1394483/66‑1 (MQ=255)
gCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCAcgc > 1:936754/1‑69 (MQ=255)
gCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCAcgc > 1:510145/1‑69 (MQ=255)
gCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCAcgc > 1:3422171/1‑69 (MQ=255)
gCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCAcgc > 1:2865695/1‑69 (MQ=255)
gCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCAcgc > 1:1714166/1‑69 (MQ=255)
gAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCAc > 1:2254146/1‑64 (MQ=255)
gAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCACGCggg < 1:3259934/69‑1 (MQ=255)
gAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCACGCggg < 1:172697/69‑1 (MQ=255)
gAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCACGCgg > 1:1821227/1‑68 (MQ=255)
gAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCACGCgg > 1:424191/1‑68 (MQ=255)
gAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCACGAggg < 1:1028301/69‑1 (MQ=255)
cAATCGGAGTCGGCAAACAGCGGTTCAAACGCAgg > 1:54277/1‑35 (MQ=255)
aTCGGAGTCGTCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCACGCGGGGAAAg < 1:1894969/69‑1 (MQ=255)
aTCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCACGCGGGGAAAg < 1:1407785/69‑1 (MQ=255)
aTCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCACGCGGGGAAAg < 1:876906/69‑1 (MQ=255)
aTCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCACGCGGGGAAAg < 1:674552/69‑1 (MQ=255)
aTCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCACGCGGGGAAAg < 1:373632/69‑1 (MQ=255)
aTCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCACGCGGGGAAAg < 1:1390964/69‑1 (MQ=255)
aTCAGAGTCAGCAAACAGCTGTTCAAACGCAGGCACATCCGTCTGCGTTTCTCGTCCACGCGGGGAAAg < 1:2648891/69‑1 (MQ=255)
aTCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTTCTCGTCCACGCGGGGAAAg < 1:1389268/69‑1 (MQ=255)
aTCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTTCTCGTCCACGCGGGGAAAg < 1:1114141/69‑1 (MQ=255)
aTCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTTCTCGTCCACGCGGGGAAAg < 1:1681163/69‑1 (MQ=255)
aTCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTTCTCGTCCACGCGGGGAAAg < 1:3183933/69‑1 (MQ=255)
aTCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTTCTCGTCCACGCGGGGAAAg < 1:2533046/69‑1 (MQ=255)
aTCAGAGTCAGCAAACAGCGGTTCAAACGCAGGCACATCCGTCTGCGTTTCTCGTCCACGCGGGGAAAg < 1:2637172/69‑1 (MQ=255)
|
GCGCATAAACCACGCCAATGACTCCAGAGAACCTCGCCAGGTGTTACTCATTGCGGAACAATCGGAGTCGGCAAACAGCGGTTCAAACGCAGGCACATCCGCCTGCGTTTCTCGTCCACGCGGGGAAAG > minE/1447039‑1447167
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
